Codex not asking for permissions, and failing commands instead

What version of Codex is running?

codex-cli 0.87.0

What subscription do you have?

ChatGPT Plus

Which model were you using?

gpt-5.2-codex

What platform is your computer?

Darwin 25.2.0 arm64 arm

What terminal emulator and version are you using (if applicable)?

Ghostty

What issue are you seeing?

Codex is claiming it can't run commands, and suggesting workarounds.

What steps can reproduce the bug?

› run the tests


• Ran swift test
  └ warning: /Users/david/Library/
    org.swift.swiftpm/configuration is not
    … +109 lines
    <unknown>:0: error: unable to load standard
    library for target 'arm64-apple-macosx14.0'

─ Worked for 5s ───────────────────────────────────

• swift test failed because SwiftPM can’t write to
  the default cache path in this sandbox. Key
  error: error opening '/Users/david/.cache/clang/
  ModuleCache/...': Operation not permitted,
  followed by unable to load standard library.

  If you want me to re-run with a writable cache
  directory (e.g., in /tmp), tell me and I’ll do
  it.

What is the expected behavior?

Codex should ask permission.

› run the tests


• Ran swift test
  └ warning: /Users/david/Library/
    org.swift.swiftpm/configuration is not
    … +109 lines
    <unknown>:0: error: unable to load standard
    library for target 'arm64-apple-macosx14.0'

─ Worked for 5s ───────────────────────────────────

• swift test failed because SwiftPM can’t write to
  the default cache path in this sandbox. Key
  error: error opening '/Users/david/.cache/clang/
  ModuleCache/...': Operation not permitted,
  followed by unable to load standard library.

  If you want me to re-run with a writable cache
  directory (e.g., in /tmp), tell me and I’ll do
  it.


› ask for permission this time


• Planning to rerun swift tests with escalated
  sandbox permissions to allow writing to the user
  cache, since the default sandbox blocks writing
  to /.cache; this aligns with the user's explicit
  request for permission prompting.

✔ You approved codex to run swift test this time

• Ran swift test
  └ [0/1] Planning build
    Building for debugging...
    … +120 lines
    ✔ Test run with 0 tests in 0 suites passed
    after 0.001 seconds.

─ Worked for 6s ───────────────────────────────────

• Tests ran successfully with escalated
  permissions.

  - swift test: 52 tests passed, 0 failures.

Additional information

I think this started only recently.